Query 028767
Match_columns 204
No_of_seqs 113 out of 195
Neff 2.9
Searched_HMMs 46136
Date Fri Mar 29 16:40:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028767.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028767hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1561 CCAAT-binding factor, 100.0 4.3E-40 9.3E-45 293.3 9.6 89 4-92 152-244 (307)
2 smart00521 CBF CCAAT-Binding t 100.0 8.6E-38 1.9E-42 225.5 5.4 62 29-90 1-62 (62)
3 PF02045 CBFB_NFYA: CCAAT-bind 100.0 1E-35 2.2E-40 212.4 3.9 57 31-87 1-58 (58)
4 COG5224 HAP2 CCAAT-binding fac 99.8 1.4E-20 3.1E-25 163.8 3.8 61 30-92 157-217 (248)
5 PF06203 CCT: CCT motif; Inte 77.1 4.3 9.3E-05 28.1 3.7 28 64-92 18-45 (45)
6 KOG1561 CCAAT-binding factor, 39.5 21 0.00046 33.0 2.1 41 44-89 14-54 (307)
7 KOG2796 Uncharacterized conser 30.4 72 0.0016 30.4 4.0 46 26-71 279-324 (366)
8 PF15046 DUF4532: Protein of u 29.8 91 0.002 29.0 4.5 22 30-51 131-152 (279)
9 cd01183 INT_SG1_C INT_SG1, DNA 16.2 3.2E+02 0.007 21.2 4.6 50 31-80 105-170 (196)
10 cd08049 TAF8 TATA Binding Prot 14.0 2.8E+02 0.0061 19.0 3.4 33 30-62 17-49 (54)
No 1
>KOG1561 consensus CCAAT-binding factor, subunit B (HAP2) [Transcription]
Probab=100.00 E-value=4.3e-40 Score=293.33 Aligned_cols=89 Identities=62% Similarity=0.943 Sum_probs=84.9
Q ss_pred ccCCCCCC--CCcccCCCC-CCCCCCCCCCC-CccccCchhhHHHHHHHHHHHHHHHhhhhhhcCCCcchhhhhHHHhhc
Q 028767 4 AYGHQPVG--YPQFVGMPH-ARMPLPLEMAQ-EPVYVNAKQYMGILRRRQARAKAELEKKLIKVRKPYLHESRHQHAMRR 79 (204)
Q Consensus 4 ~yg~q~~~--~p~~~Gm~~-~r~~LP~e~~~-ePvyVNaKQY~rIlrRR~~Rak~e~~~kl~k~rk~YlHESRH~HAm~R 79 (204)
+|++|++. .+++.||.+ .|+|||.++.+ ||||||||||++|||||++|||||+++||+|.||||||||||+|||||
T Consensus 152 ~y~~~~~~~~~~q~~g~~~~~r~pLP~~~~e~ePl~VNaKQY~~IlrRRq~RaKlEa~~klik~RkpYLHESRH~HAmkR 231 (307)
T KOG1561|consen 152 AYSGQPTNTASTQYSGPVPHDRTPLPQTDSETEPLYVNAKQYHRILRRRQARAKLEATTKLIKARKPYLHESRHLHAMKR 231 (307)
T ss_pred cccCCCCccccccccCCCCcCcccCCccccCCCceeEcHHHHHHHHHHHHHHhhhhhcccchhhcCccccchhhHHHhhc
Confidence 79999874 778899988 99999999876 999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCcccccCC
Q 028767 80 ARGSGGRFAKKTD 92 (204)
Q Consensus 80 ~RG~gGRFl~k~e 92 (204)
+||+|||||++++
T Consensus 232 ~RG~GGRFln~k~ 244 (307)
T KOG1561|consen 232 ARGEGGRFLNTKE 244 (307)
T ss_pred ccCCCCCCCchhh
Confidence 9999999999888
No 2
>smart00521 CBF CCAAT-Binding transcription Factor.
Probab=100.00 E-value=8.6e-38 Score=225.53 Aligned_cols=62 Identities=74% Similarity=1.065 Sum_probs=60.1
Q ss_pred CCCCccccCchhhHHHHHHHHHHHHHHHhhhhhhcCCCcchhhhhHHHhhcCCCCCCccccc
Q 028767 29 MAQEPVYVNAKQYMGILRRRQARAKAELEKKLIKVRKPYLHESRHQHAMRRARGSGGRFAKK 90 (204)
Q Consensus 29 ~~~ePvyVNaKQY~rIlrRR~~Rak~e~~~kl~k~rk~YlHESRH~HAm~R~RG~gGRFl~k 90 (204)
++++|||||||||++|||||++|||+|+++++++.||||||||||+|||+|+||+|||||++
T Consensus 1 ~~~~piyVNaKQy~~IlrRR~~Rak~e~~~kl~~~rkpYlhESRH~HAm~R~Rg~gGRFl~~ 62 (62)
T smart00521 1 AEEEPVYVNAKQYHRILRRRQARAKLEAQGKLPKERKPYLHESRHLHAMRRPRGSGGRFLNT 62 (62)
T ss_pred CCCcceeEcHHHHHHHHHHHHHHHHHHHhcchhhccCCcccchhHHHHHccCcCCCCCCCCC
Confidence 46899999999999999999999999999999999999999999999999999999999984
No 3
>PF02045 CBFB_NFYA: CCAAT-binding transcription factor (CBF-B/NF-YA) subunit B; InterPro: IPR001289 The CCAAT-binding factor (CBFB/NF-YA) is a mammalian transcription factor that binds to a CCAAT motif in the promoters of a wide variety of genes, including type I collagen and albumin []. The factor is a heteromeric complex of A and B subunits, both of which are required for DNA-binding []. The subunits can interact in the absence of DNA-binding, conserved regions in each being important in mediating this interaction. The B subunit contains a region of similarity with the yeast protein HAP2 []. For the B subunit it has been suggested that the N-terminal portion of the conserved region is involved in subunit interaction and the C-terminal region involved in DNA-binding [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=100.00 E-value=1e-35 Score=212.43 Aligned_cols=57 Identities=79% Similarity=1.182 Sum_probs=56.2
Q ss_pred CCccccCchhhHHHHHHHHHHHHHHHhhhh-hhcCCCcchhhhhHHHhhcCCCCCCcc
Q 028767 31 QEPVYVNAKQYMGILRRRQARAKAELEKKL-IKVRKPYLHESRHQHAMRRARGSGGRF 87 (204)
Q Consensus 31 ~ePvyVNaKQY~rIlrRR~~Rak~e~~~kl-~k~rk~YlHESRH~HAm~R~RG~gGRF 87 (204)
++|||||||||++|||||++|||+|+++++ ++.||||||||||+|||+|+||+||||
T Consensus 1 ~~piyVNaKQY~rIlrRR~~Rakle~~~k~~~~~rk~YlheSRH~HA~~R~Rg~gGRF 58 (58)
T PF02045_consen 1 EEPIYVNAKQYHRILRRRQARAKLEAEGKLSPKKRKPYLHESRHKHAMRRPRGPGGRF 58 (58)
T ss_pred CCCeeECHHHHHHHHHHHHHHHHHHHhCCcchhhhHHHHHHHHHHHHHcCccCCCCCC
Confidence 689999999999999999999999999999 999999999999999999999999999
No 4
>COG5224 HAP2 CCAAT-binding factor, subunit B [Transcription]
Probab=99.80 E-value=1.4e-20 Score=163.83 Aligned_cols=61 Identities=43% Similarity=0.551 Sum_probs=55.2
Q ss_pred CCCccccCchhhHHHHHHHHHHHHHHHhhhhhhcCCCcchhhhhHHHhhcCCCCCCcccccCC
Q 028767 30 AQEPVYVNAKQYMGILRRRQARAKAELEKKLIKVRKPYLHESRHQHAMRRARGSGGRFAKKTD 92 (204)
Q Consensus 30 ~~ePvyVNaKQY~rIlrRR~~Rak~e~~~kl~k~rk~YlHESRH~HAm~R~RG~gGRFl~k~e 92 (204)
..+|.|||+|||++|+|||-+|++++. +|.-.|..|||||||+|||+|+|+++||||+++|
T Consensus 157 sfqp~Yvnakq~n~i~kr~~~r~~ld~--~~~~~r~~ylHesrhkham~r~r~ptgrfLtasE 217 (248)
T COG5224 157 SFQPDYVNAKQGNEISKRPGLRVYLDD--SVSAGRAFYLHESRHKHAMLRVRDPTGRFLTASE 217 (248)
T ss_pred ccCcchhhhhhhhHHhcchhHHHHHHH--HhhhhhhhccccchhhhhhhcccCCCcceecHHh
Confidence 478999999999999999999987664 5666777799999999999999999999999988
No 5
>PF06203 CCT: CCT motif; InterPro: IPR010402 The CCT (CONSTANS, CO-like, and TOC1) domain is a highly conserved basic module of ~43 amino acids, which is found near the C terminus of plant proteins often involved in light signal transduction. The CCT domain is found in association with other domains, such as the B-box zinc finger, the GATA-type zinc finger, the ZIM motif or the response regulatory domain. The CCT domain contains a putative nuclear localisation signal within the second half of the CCT motif and has been shown to be involved in nuclear localization and probably also has a role in protein-protein interaction [].; GO: 0005515 protein binding
Probab=77.10 E-value=4.3 Score=28.10 Aligned_cols=28 Identities=43% Similarity=0.529 Sum_probs=23.7
Q ss_pred CCCcchhhhhHHHhhcCCCCCCcccccCC
Q 028767 64 RKPYLHESRHQHAMRRARGSGGRFAKKTD 92 (204)
Q Consensus 64 rk~YlHESRH~HAm~R~RG~gGRFl~k~e 92 (204)
-|.-.+++|..=|..|+|-. |||++.+|
T Consensus 18 ~kkirY~~Rk~~A~~R~Rvk-GRFvk~~e 45 (45)
T PF06203_consen 18 EKKIRYESRKAVADKRPRVK-GRFVKKSE 45 (45)
T ss_pred cccCCcchHHHHHhhCCccC-CcccCCCC
Confidence 34567899999999999975 99998764
No 6
>KOG1561 consensus CCAAT-binding factor, subunit B (HAP2) [Transcription]
Probab=39.45 E-value=21 Score=33.04 Aligned_cols=41 Identities=59% Similarity=1.019 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHhhhhhhcCCCcchhhhhHHHhhcCCCCCCcccc
Q 028767 44 ILRRRQARAKAELEKKLIKVRKPYLHESRHQHAMRRARGSGGRFAK 89 (204)
Q Consensus 44 IlrRR~~Rak~e~~~kl~k~rk~YlHESRH~HAm~R~RG~gGRFl~ 89 (204)
+++++..+++.. ++-.....+||++|+.+.+.+ +.+++|++
T Consensus 14 ~~~~~~~~q~~~-~~~~~~~~~p~~~~s~~~~q~----~~s~~~~s 54 (307)
T KOG1561|consen 14 ILKRREARQKPE-ERGVQTTKKPYLHESGHKHQM----GPGGRFLS 54 (307)
T ss_pred cccccccccccc-ccccccccccccCcccccccc----cccccccC
Confidence 777777776644 335577899999999999999 88999997
No 7
>KOG2796 consensus Uncharacterized conserved protein [Function unknown]
Probab=30.37 E-value=72 Score=30.45 Aligned_cols=46 Identities=24% Similarity=0.175 Sum_probs=34.7
Q ss_pred CCCCCCCccccCchhhHHHHHHHHHHHHHHHhhhhhhcCCCcchhh
Q 028767 26 PLEMAQEPVYVNAKQYMGILRRRQARAKAELEKKLIKVRKPYLHES 71 (204)
Q Consensus 26 P~e~~~ePvyVNaKQY~rIlrRR~~Rak~e~~~kl~k~rk~YlHES 71 (204)
|.--...|||||-|-.--.--+|..-|-..++..++....+|||||
T Consensus 279 ~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~~l~es 324 (366)
T KOG2796|consen 279 LRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRHYLHES 324 (366)
T ss_pred cccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCccchhhh
Confidence 3333567999999987666666666666667777788899999995
No 8
>PF15046 DUF4532: Protein of unknown function (DUF4532)
Probab=29.81 E-value=91 Score=29.00 Aligned_cols=22 Identities=14% Similarity=0.365 Sum_probs=17.3
Q ss_pred CCCccccCchhhHHHHHHHHHH
Q 028767 30 AQEPVYVNAKQYMGILRRRQAR 51 (204)
Q Consensus 30 ~~ePvyVNaKQY~rIlrRR~~R 51 (204)
..-||||++++=+.++.|=.+.
T Consensus 131 ~~~pif~D~~rK~qvI~rt~KE 152 (279)
T PF15046_consen 131 SCTPIFVDPNRKNQVILRTVKE 152 (279)
T ss_pred hcccceechhhhhHHHHHHHHH
Confidence 3569999999999888775544
No 9
>cd01183 INT_SG1_C INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in proteobacteria. These proteins have not been biochemically characerised as yet.
Probab=16.20 E-value=3.2e+02 Score=21.23 Aligned_cols=50 Identities=26% Similarity=0.293 Sum_probs=28.3
Q ss_pred CCccccCch-----------hhHHHHHHHHHHHHHHHhh-----hhhhcCCCcchhhhhHHHhhcC
Q 028767 31 QEPVYVNAK-----------QYMGILRRRQARAKAELEK-----KLIKVRKPYLHESRHQHAMRRA 80 (204)
Q Consensus 31 ~ePvyVNaK-----------QY~rIlrRR~~Rak~e~~~-----kl~k~rk~YlHESRH~HAm~R~ 80 (204)
..|||++.+ .+.+|+++--+++...+.. .....+.--.|-=||.+|..-.
T Consensus 105 ~~~lF~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~H~lRht~at~l~ 170 (196)
T cd01183 105 AVPLLGRHKSAGGGGGLSSAQLYRIVKRVFGAAADRLQADGFEEDAAQLRAASTHWLRHTHASHDL 170 (196)
T ss_pred CCceeeccccccCCCCCCHHHHHHHHHHHHHHHHHHHHhccChhHHHhhcccchHHHHHHHHHHHH
Confidence 346777644 4667777655554333221 0111234458999999997644
No 10
>cd08049 TAF8 TATA Binding Protein (TBP) Associated Factor 8. The TATA Binding Protein (TBP) Associated Factor 8 (TAF8) is one of several TAFs that bind TBP, and is involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and the assembly of the preinitiation complex. The TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs' functions, such as serving as activator-binding sites, involvement in the core-promo
Probab=14.00 E-value=2.8e+02 Score=19.01 Aligned_cols=33 Identities=24% Similarity=0.329 Sum_probs=24.9
Q ss_pred CCCccccCchhhHHHHHHHHHHHHHHHhhhhhh
Q 028767 30 AQEPVYVNAKQYMGILRRRQARAKAELEKKLIK 62 (204)
Q Consensus 30 ~~ePvyVNaKQY~rIlrRR~~Rak~e~~~kl~k 62 (204)
..-|+|.....=...+|.+.++++...+..|.+
T Consensus 17 ~~Tp~~~~~~~d~~~~r~~~~~~~r~~e~aL~~ 49 (54)
T cd08049 17 KRTPTYSERETDPKKLREELASQRRLAEKALLR 49 (54)
T ss_pred ccCCCCCCCccCHHHHHHHHHHHHHHHHHHHHH
Confidence 456888888887788888888888777766643
Done!